Transcript: Mouse XM_006516767.4

PREDICTED: Mus musculus cyclin-dependent kinase 13 (Cdk13), transcript variant X2, mRNA.

Source:
NCBI, updated 2019-08-08
Taxon:
Mus musculus (mouse)
Gene:
Cdk13 (69562)
Length:
11350
CDS:
562..4965

Additional Resources:

NCBI RefSeq record:
XM_006516767.4
NBCI Gene record:
Cdk13 (69562)

sgRNA constructs matching this transcript (CRISPRko, NGG PAM)

This list includes CRISPRko constructs with 100% (20mer + NGG) sequence match to the coding regions of this transcript.

Clone ID Target Seq Vector PAM Seq Cut Position Cut % of CDS Length Exon On Target Score[?] Other Matching Genes Orig. Target Gene[?] Notes Addgene[?]
1 BRDN0001148050 AGAATATGTGGGCCTCGCTA pXPR_003 TGG 2057 47% 4 1.3246 Cdk13 CDK13 76626
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shRNA constructs matching this transcript with 100% SDR[?] match

This list includes all shRNAs that have a perfect SDR[?] match to Mouse XM_006516767.4, regardless of what transcript they were originally designed to target. For example, this list can include shRNAs that were originally designed to target: (i) a different isoform or obsolete version of this transcript (as annotated by NCBI), (ii) a transcript of an orthologous gene (in this collection, generally human-to-mouse or mouse-to-human), or (iii) a transcript of a different gene (from the same or different taxon).

Clone ID Target Seq Vector Match Position Match Region[?] SDR Match %[?] Intrinsic Score[?] Adjusted Score[?] Matches Other Mouse Gene?[?] Orig. Target Gene[?] Addgene[?]
1 TRCN0000360645 TAGAGCTAATAAGCCGTATAT pLKO_005 3329 CDS 100% 13.200 18.480 N Cdk13 n/a
2 TRCN0000022984 CCTGGATTATTGTCATAAGAA pLKO.1 3033 CDS 100% 5.625 7.875 N Cdk13 n/a
3 TRCN0000022985 CCCATATACTAACAAGGTCAT pLKO.1 3165 CDS 100% 4.050 5.670 N Cdk13 n/a
4 TRCN0000360724 CCGAAGCAGAAGCCCATATTC pLKO_005 1791 CDS 100% 13.200 10.560 N Cdk13 n/a
5 TRCN0000368694 TTTGGACTTGCTCGTTTATAT pLKO_005 3127 CDS 100% 15.000 10.500 N Cdk13 n/a
6 TRCN0000360722 CTTGGGAGAAGAACGATATAC pLKO_005 3216 CDS 100% 13.200 9.240 N Cdk13 n/a
7 TRCN0000022988 GCCAGTTCAGTAGCTGGATAT pLKO.1 4627 CDS 100% 10.800 7.560 N Cdk13 n/a
8 TRCN0000022986 CCAGAGTATCATCAATATGAA pLKO.1 2844 CDS 100% 5.625 3.938 N Cdk13 n/a
9 TRCN0000000700 AGTGTTATTGTGAAAGGTGTA pLKO.1 5480 3UTR 100% 4.050 2.430 N CDK13 n/a
10 TRCN0000166364 CACACACACACACACACACAA pLKO.1 6399 3UTR 100% 4.950 2.475 Y KAAG1 n/a
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shRNA constructs with at least a near match to this transcript

This list includes shRNAs that have at least a >84% (16 of 19 bases) SDR[?] match to the transcript XM_006516767.4, regardless of what transcript they were originally designed to target. For example, this list can include shRNAs that were originally designed to target: (i) a different isoform or obsolete version of this transcript (as annotated by NCBI), (ii) a transcript of an orthologous gene (in this collection, generally human-to-mouse or mouse-to-human), or (iii) a transcript of a different gene (from the same or different taxon). NOTE: this download is a superset of the above result set.

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All ORF constructs matching this transcript

Clone ID DNA Barcode Vector Sequenced %[?] Nuc. Match %[?] Prot. Match %[?] Epitope Tag Match Diffs[?] Addgene[?]
1 ccsbBroadEn_11288 pDONR223 100% 20.4% 21% None (many diffs) n/a
2 ccsbBroad304_11288 pLX_304 0% 20.4% 21% V5 (many diffs) n/a
3 TRCN0000470462 CGCGCTGGCGATCTTAACCCATCA pLX_317 41.9% 20.4% 21% V5 (many diffs) n/a
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